E. coli MLST Strain Identification

The initial analysis and identification of the strains were performed using an in silico E. coli MLST approach, based on the information available at the E. coli MLST website Enterobase (http://enterobase.warwick.ac.uk/species/index/ecoli) and using Ridom SeqSphere+ software v2.4.0 (Ridom; Münster, Germany) (http://www.ridom.com/seqsphere). Seven housekeeping genes (dnaE, gyrB, recA, dtdS, pntA, pyrC, and tnaA), described previously for E. coli [15 (link)], were used for MLST analysis.

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González-Escalona N., Allard M.A., Brown E.W., Sharma S, & Hoffmann M. (2019). Nanopore sequencing for fast determination of plasmids, phages, virulence markers, and antimicrobial resistance genes in Shiga toxin-producing Escherichia coli. PLoS ONE, 14(7), e0220494.

Publication 2019

SeqSphere+ software v2.4.0

Dtds E coli Housekeeping genes Strains

Corresponding Organization : Center for Food Safety and Applied Nutrition

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